Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0004127

Physical Location & Seq

Genomic Coordinates Forward (+)

52782646 .. 52784064

Gene Structure 1419 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG226700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1014 bp

ATGGCCGCGGCTCCTCCACCTTCCAACTCCACACCCACCAAACTCAACCCCAAGACCGTGCGAAAAGCCGTCAATGCCCTCCTCAAATGGCGAAATTCCCAGACCCAGAACCCCGACGATCTCTTAGACTCCTCCGACGAATTCACCTACCTCGTCCTCACCCTGAAGAAAATCCCACCAAAGGGTCGCGTCAACGCCTTCAAAATCCCTCTCCCAAATCCCCTCCTCTCCGAATTCACCCAGTTCTGCCTGATCTACGACGACGGCCCCAAGTCCAAGCTCACCAAGGACCAAATCGACAAGAGGATCAAAACCCACAACTTACCCATCACCAAAACACTCAAGCTCTCCAAGCTCAAGTCCGATTACAAGTCTTTTGAGGCCAAGAGGAAGCTGATGGAGTCGTATGATGCGTTTCTGGCTGATAAGCAGATTGTGCCGTTGCTTCCCAGGCTTTTGGGGAAGCAGTTCTTCAAGAAGAAGAGGATGATTCCGGTGCCGGTGGACTTGCAACAGAAGAACTGGAAGGAGCAGGTGGATAGGGTTATCCAGTCGGCGATGTTGTTCTTGAGTACTGGGACTTGTAGTGTTGTGAGGGTGGCCAGGACTTTGATGAGTGCTGAGCAGATTGTTGAGAATGTGGTTGCCGCGGTTGATGGGATTGTGGAGATTGTTCCCAGGAATTGGGGCGGTGTGAGGTCGTTTCATTTGAAGCTGTTGGAGTCACTTGCGCTGCCGGTGTATCAGGCTGTGCCGGATGAGACATTGTTGAAGATTGAGGGAGTTAAGGGGAGCCAGAAAGAGGTTGTGAAGAATGAGAATAAGGATTTGAAGAATGAGAAAGTGGGTAAGAAGAAGGGTAGGATTAGTGAAGTGAGGTATATGGATAGAAATGTTGGGGAGGTGCTTGATGAGGATGAGTTAAGTGATGGTGTCATTGTCGACAAGGAGAAGAGGAAGAGTGAAGACGCAAAGCTGAAGAAAGCTAAGAGGAGTAAGAATGCAGCAGAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0008150 GO:0010941 GO:0031974 GO:0031981 GO:0042981 GO:0043067 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0048583 GO:0050789 GO:0050793 GO:0050794 GO:0065007 GO:0070013 GO:0080134 GO:0080135 GO:0090342 GO:2000772

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Ribosomal_L1

Protein Analysis

337

Amino Acids

38.09

Weight (kDa)

9.7

Isoelectric Point (pI)

30.69

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ribosomal_L1	PF00687	46 - 242	1e-42	Ribosomal protein L1p/L10e family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0004127)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G06380 AT2G42650 AT3G58660
fragaria_vesca	FvH4_4g16980 FvH4_6g38200
malus_domestica	MD09G1152200.v1.1 MD17G1139700.v1.1
prunus_persica	Prupe.3G172300_v2.0.a1 Prupe.5G091000_v2.0.a1
pyrus_communis	pycom09g07150 pycom17g13280
rosa_chinensis	RchiOBHm_Chr2g0151461 RchiOBHm_Chr4g0420651
rosa_laevigata	RLG00000007744 RLG00000020550
rosa_multiflora	Rmu_co8481729.1_g000001 Rmu_sc0000940.1_g000011 Rmu_sc0007337.1_g000002 Rmu_sc0011080.1_g000010
rosa_roxburghii	Rroxscaffold_2G00096450 Rroxscaffold_5G00363190
rosa_rugosa	Rorug02G0426100 Rorug04G0165100
rosa_samantha	Rh2AG486900 Rh2BG499300 Rh2CG473400 Rh4AG226700 Rh4BG229300 Rh4CG241700 Rh4DG225000
rosa_wichuraiana	Rw2G039910 Rw4G019600 Rw4G019620

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	523
Acc36I	ACCTGC	1 cut(s)	523
AccB1I	GGYRCC	1 cut(s)	496
AccB7I	CCANNNNNTGG	1 cut(s)	684
AccI	GTMKAC	1 cut(s)	942
AccII	CGCG	3 cut(s)	8, 189, 650
AciI	CCGC	5 cut(s)	6, 8, 648, 650, 690
AclWI	GGATC	1 cut(s)	314
AcoI	YGGCCR	2 cut(s)	3, 600
AcsI	RAATTY	3 cut(s)	94, 140, 233
AcuI	CTGAAG	2 cut(s)	185, 998
AfaI	GTAC	1 cut(s)	574
AfiI	CCNNNNNNNGG	4 cut(s)	181, 182, 684, 802
AgsI	TTSAA	5 cut(s)	202, 475, 712, 772, 832
AjnI	CCWGG	3 cut(s)	449, 602, 677
AluBI	AGCT	7 cut(s)	280, 346, 355, 394, 715, 976, 986
AluI	AGCT	7 cut(s)	280, 346, 355, 394, 715, 976, 986
Alw26I	GTCTC	1 cut(s)	755
AlwI	GGATC	1 cut(s)	314
AoxI	GGCC	4 cut(s)	3, 265, 381, 600
ApeKI	GCWGC	2 cut(s)	733, 1004
ApoI	RAATTY	3 cut(s)	94, 140, 233
Asp700I	GAANNNNTTC	1 cut(s)	467
AspLEI	GCGC	1 cut(s)	733
AspS9I	GGNCC	2 cut(s)	266, 289
AsuHPI	GGTGA	5 cut(s)	136, 151, 229, 274, 322
AvaII	GGWCC	1 cut(s)	289
BalI	TGGCCA	1 cut(s)	602
BanI	GGYRCC	1 cut(s)	496
BbsI	GAAGAC	1 cut(s)	972
BbvI	GCAGC	1 cut(s)	720
BccI	CCATC	4 cut(s)	335, 391, 650, 923
BceAI	ACGGC	3 cut(s)	53, 280, 424
BciT130I	CCWGG	3 cut(s)	451, 604, 679
BcoDI	GTCTC	1 cut(s)	755
BfuAI	ACCTGC	1 cut(s)	523
BisI	GCNGC	5 cut(s)	6, 9, 648, 734, 1005
BlpI	GCTNAGC	1 cut(s)	621
BlsI	GCNGC	5 cut(s)	7, 10, 649, 735, 1006
BmcAI	AGTACT	1 cut(s)	574
Bme1390I	CCNGG	3 cut(s)	451, 604, 679
Bme18I	GGWCC	1 cut(s)	289
BmgT120I	GGNCC	2 cut(s)	266, 289
BmiI	GGNNCC	4 cut(s)	12, 268, 498, 794
BmrFI	CCNGG	3 cut(s)	451, 604, 679
BmrI	ACTGGG	2 cut(s)	235, 585
BmsI	GCATC	1 cut(s)	400
BmuI	ACTGGG	2 cut(s)	235, 585
BpiI	GAAGAC	1 cut(s)	972
Bpu1102I	GCTNAGC	1 cut(s)	621
BpuEI	CTTGAG	3 cut(s)	326, 341, 589
BsaJI	CCNNGG	5 cut(s)	6, 285, 449, 648, 677
BsaWI	WCCGGW	1 cut(s)	493
Bsc4I	CCNNNNNNNGG	4 cut(s)	181, 182, 684, 802
Bse118I	RCCGGY	2 cut(s)	499, 736
Bse1I	ACTGG	4 cut(s)	241, 527, 550, 580
BseBI	CCWGG	3 cut(s)	451, 604, 679
BseDI	CCNNGG	5 cut(s)	6, 285, 449, 648, 677
BseGI	GGATG	3 cut(s)	492, 763, 922
BseLI	CCNNNNNNNGG	4 cut(s)	181, 182, 684, 802
BseMII	CTCAG	1 cut(s)	612
BseNI	ACTGG	4 cut(s)	241, 527, 550, 580
BseRI	GAGGAG	4 cut(s)	71, 121, 215, 1006
BseXI	GCAGC	1 cut(s)	720
Bsh1236I	CGCG	3 cut(s)	8, 189, 650
BshFI	GGCC	4 cut(s)	5, 267, 383, 602
BshNI	GGYRCC	1 cut(s)	496
BsiSI	CCGG	4 cut(s)	494, 500, 737, 755
BslFI	GGGAC	1 cut(s)	592
BslI	CCNNNNNNNGG	4 cut(s)	181, 182, 684, 802
BsmAI	GTCTC	1 cut(s)	755
BsmFI	GGGAC	1 cut(s)	592
BsmI	GAATGC	1 cut(s)	1006
BsnI	GGCC	4 cut(s)	5, 267, 383, 602
Bsp143I	GATC	3 cut(s)	118, 252, 306
Bsp1720I	GCTNAGC	1 cut(s)	621
BspACI	CCGC	5 cut(s)	6, 8, 648, 650, 690
BspANI	GGCC	4 cut(s)	5, 267, 383, 602
BspCNI	CTCAG	1 cut(s)	613
BspFNI	CGCG	3 cut(s)	8, 189, 650
BspLI	GGNNCC	4 cut(s)	12, 268, 498, 794
BspMI	ACCTGC	1 cut(s)	523
BspPI	GGATC	1 cut(s)	314
BspT107I	GGYRCC	1 cut(s)	496
BsrFI	RCCGGY	2 cut(s)	499, 736
BsrI	ACTGG	4 cut(s)	241, 527, 550, 580
BssAI	RCCGGY	2 cut(s)	499, 736
BssECI	CCNNGG	5 cut(s)	6, 285, 449, 648, 677
BssMI	GATC	3 cut(s)	118, 252, 306
BssT1I	CCWWGG	1 cut(s)	285
Bst2UI	CCWGG	3 cut(s)	451, 604, 679
Bst4CI	ACNGT	1 cut(s)	58
Bst6I	CTCTTC	3 cut(s)	476, 947, 953
BstAPI	GCANNNNNTGC	1 cut(s)	436
BstDEI	CTNAG	3 cut(s)	124, 621, 987
BstDSI	CCRYGG	2 cut(s)	6, 648
BstF5I	GGATG	3 cut(s)	492, 763, 922
BstFNI	CGCG	3 cut(s)	8, 189, 650
BstHHI	GCGC	1 cut(s)	733
BstKTI	GATC	3 cut(s)	121, 255, 309
BstMAI	GTCTC	1 cut(s)	755
BstMBI	GATC	3 cut(s)	118, 252, 306
BstMWI	GCNNNNNNNGC	5 cut(s)	74, 352, 419, 436, 451
BstNI	CCWGG	3 cut(s)	451, 604, 679
BstSCI	CCNGG	3 cut(s)	449, 602, 677
BstUI	CGCG	3 cut(s)	8, 189, 650
BstV1I	GCAGC	1 cut(s)	720
BstV2I	GAAGAC	1 cut(s)	972
BstXI	CCANNNNNNTGG	1 cut(s)	457
BsuRI	GGCC	4 cut(s)	5, 267, 383, 602
BtgI	CCRYGG	2 cut(s)	6, 648
BtgZI	GCGATG	1 cut(s)	572
BtsCI	GGATG	3 cut(s)	492, 763, 922
BveI	ACCTGC	1 cut(s)	523
CfoI	GCGC	1 cut(s)	733
Cfr10I	RCCGGY	2 cut(s)	499, 736
Cfr13I	GGNCC	2 cut(s)	266, 289
Cfr42I	CCGCGG	2 cut(s)	9, 651
CseI	GACGC	2 cut(s)	178, 977
Csp6I	GTAC	1 cut(s)	573
CviQI	GTAC	1 cut(s)	573
DdeI	CTNAG	3 cut(s)	124, 621, 987
DpnI	GATC	3 cut(s)	120, 254, 308
DpnII	GATC	3 cut(s)	118, 252, 306
EaeI	YGGCCR	2 cut(s)	3, 600
Eam1104I	CTCTTC	3 cut(s)	476, 947, 953
EarI	CTCTTC	3 cut(s)	476, 947, 953
Eco130I	CCWWGG	1 cut(s)	285
Eco47I	GGWCC	1 cut(s)	289
Eco57I	CTGAAG	2 cut(s)	185, 998
EcoRI	GAATTC	2 cut(s)	140, 233
EcoRII	CCWGG	3 cut(s)	449, 602, 677
EcoT14I	CCWWGG	1 cut(s)	285
ErhI	CCWWGG	1 cut(s)	285
FaiI	YATR	3 cut(s)	408, 882, 884
FalI	AAGNNNNNCTT	2 cut(s)	455, 487
FaqI	GGGAC	1 cut(s)	592
FblI	GTMKAC	1 cut(s)	942
Fnu4HI	GCNGC	5 cut(s)	6, 9, 648, 734, 1005
FokI	GGATG	3 cut(s)	499, 770, 929
Fsp4HI	GCNGC	5 cut(s)	6, 9, 648, 734, 1005
GlaI	GCGC	1 cut(s)	732
GluI	GCNGC	5 cut(s)	6, 9, 648, 734, 1005
HaeIII	GGCC	4 cut(s)	5, 267, 383, 602
HapII	CCGG	4 cut(s)	494, 500, 737, 755
HgaI	GACGC	2 cut(s)	178, 977
HhaI	GCGC	1 cut(s)	733
Hin6I	GCGC	1 cut(s)	731
HinP1I	GCGC	1 cut(s)	731
HincII	GTYRAC	2 cut(s)	193, 943
HindII	GTYRAC	2 cut(s)	193, 943
HinfI	GANTC	4 cut(s)	128, 401, 490, 722
HpaII	CCGG	4 cut(s)	494, 500, 737, 755
HphI	GGTGA	5 cut(s)	136, 151, 229, 274, 322
Hpy166II	GTNNAC	3 cut(s)	193, 505, 943
Hpy188I	TCNGA	3 cut(s)	136, 232, 364
Hpy188III	TCNNGA	2 cut(s)	475, 568
Hpy8I	GTNNAC	3 cut(s)	193, 505, 943
Hpy99I	CGWCG	4 cut(s)	119, 140, 263, 266
HpyAV	CCTTC	4 cut(s)	30, 208, 520, 850
HpyCH4III	ACNGT	1 cut(s)	58
HpyCH4V	TGCA	2 cut(s)	511, 1004
HpyF10VI	GCNNNNNNNGC	5 cut(s)	74, 352, 419, 436, 451
HpyF3I	CTNAG	3 cut(s)	124, 621, 987
HspAI	GCGC	1 cut(s)	731
KspI	CCGCGG	2 cut(s)	9, 651
Kzo9I	GATC	3 cut(s)	118, 252, 306
LmnI	GCTCC	3 cut(s)	16, 529, 792
Lsp1109I	GCAGC	1 cut(s)	720
LweI	GCATC	1 cut(s)	400
MaeIII	GTNAC	1 cut(s)	723
MalI	GATC	3 cut(s)	120, 254, 308
MboI	GATC	3 cut(s)	118, 252, 306
MlsI	TGGCCA	1 cut(s)	602
MluCI	AATT	4 cut(s)	94, 140, 233, 682
MluNI	TGGCCA	1 cut(s)	602
MlyI	GAGTC	3 cut(s)	122, 410, 731
MmeI	TCCRAC	3 cut(s)	48, 159, 699
Mox20I	TGGCCA	1 cut(s)	602
MroXI	GAANNNNTTC	1 cut(s)	467
MscI	TGGCCA	1 cut(s)	602
MseI	TTAA	2 cut(s)	786, 923
Msp20I	TGGCCA	1 cut(s)	602
MspA1I	CMGCKG	2 cut(s)	8, 650
MspI	CCGG	4 cut(s)	494, 500, 737, 755
MspR9I	CCNGG	3 cut(s)	451, 604, 679
Mva1269I	GAATGC	1 cut(s)	1006
MvaI	CCWGG	3 cut(s)	451, 604, 679
MvnI	CGCG	3 cut(s)	8, 189, 650
MwoI	GCNNNNNNNGC	5 cut(s)	74, 352, 419, 436, 451
NdeII	GATC	3 cut(s)	118, 252, 306
NlaIV	GGNNCC	4 cut(s)	12, 268, 498, 794
NmuCI	GTSAC	1 cut(s)	723
PaqCI	CACCTGC	1 cut(s)	523
PcsI	WCGNNNNNNNCGW	1 cut(s)	410
PctI	GAATGC	1 cut(s)	1006
PdmI	GAANNNNTTC	1 cut(s)	467
PfeI	GAWTC	1 cut(s)	490
PflMI	CCANNNNNTGG	1 cut(s)	684
PkrI	GCNGC	5 cut(s)	7, 10, 649, 735, 1006
PleI	GAGTC	3 cut(s)	122, 409, 730
PpsI	GAGTC	3 cut(s)	122, 409, 730
Psp6I	CCWGG	3 cut(s)	449, 602, 677
PspGI	CCWGG	3 cut(s)	449, 602, 677
PspN4I	GGNNCC	4 cut(s)	12, 268, 498, 794
PspPI	GGNCC	2 cut(s)	266, 289
RsaI	GTAC	1 cut(s)	574
RsaNI	GTAC	1 cut(s)	573
SacII	CCGCGG	2 cut(s)	9, 651
SalI	GTCGAC	1 cut(s)	941
SaqAI	TTAA	2 cut(s)	786, 923
SatI	GCNGC	5 cut(s)	6, 9, 648, 734, 1005
Sau3AI	GATC	3 cut(s)	118, 252, 306
Sau96I	GGNCC	2 cut(s)	266, 289
ScaI	AGTACT	1 cut(s)	574
SchI	GAGTC	3 cut(s)	122, 410, 731
ScrFI	CCNGG	3 cut(s)	451, 604, 679
SfaNI	GCATC	1 cut(s)	400
Sfr303I	CCGCGG	2 cut(s)	9, 651
SgrBI	CCGCGG	2 cut(s)	9, 651
SinI	GGWCC	1 cut(s)	289
SmlI	CTYRAG	3 cut(s)	341, 356, 568
SmoI	CTYRAG	3 cut(s)	341, 356, 568
Sse9I	AATT	4 cut(s)	94, 140, 233, 682
SsiI	CCGC	5 cut(s)	6, 8, 648, 650, 690
StyD4I	CCNGG	3 cut(s)	449, 602, 677
StyI	CCWWGG	1 cut(s)	285
TaaI	ACNGT	1 cut(s)	58
TaqI	TCGA	2 cut(s)	297, 942
TasI	AATT	4 cut(s)	94, 140, 233, 682
TatI	WGTACW	1 cut(s)	572
TauI	GCSGC	3 cut(s)	8, 11, 650
TfiI	GAWTC	1 cut(s)	490
Tru1I	TTAA	2 cut(s)	786, 923
Tru9I	TTAA	2 cut(s)	786, 923
TseFI	GTSAC	1 cut(s)	723
TseI	GCWGC	2 cut(s)	733, 1004
Tsp45I	GTSAC	1 cut(s)	723
TspDTI	ATGAA	1 cut(s)	695
Van91I	CCANNNNNTGG	1 cut(s)	684
VpaK11BI	GGWCC	1 cut(s)	289
XapI	RAATTY	3 cut(s)	94, 140, 233
XmiI	GTMKAC	1 cut(s)	942
XmnI	GAANNNNTTC	1 cut(s)	467
ZrmI	AGTACT	1 cut(s)	574

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.